[Bioc-devel] Shouldn't we distinguish between package-specific and dependency errors?]

Dan Tenenbaum dtenenba at fredhutch.org
Fri Sep 25 17:37:16 CEST 2015

----- Original Message -----
> From: "Philipp Angerer" <philipp.angerer at helmholtz-muenchen.de>
> To: bioc-devel at r-project.org
> Sent: Friday, September 25, 2015 12:27:13 AM
> Subject: Re: [Bioc-devel] Shouldn't we distinguish between package-specific	and dependency errors?]
> On Thursday 24 September 2015 19:54:04 Ludwig Geistlinger wrote:
> > Well, I guess, Dan, that basically means that breaking cannot
> > happen
> > within Bioc (as broken packages do not propagate to the repository)
> > and
> > such cases are exclusively due to breaking of external dependencies
> > such
> > as observed with KEGGREST and KEGG (where we can hardly do much
> > about
> it).
> > 
> > Thus, it remains to clarify on the purpose of the “build” shield as
> > Wolfgang pointed out.
> > While it is surely helpful for the developer to grasp what is going
> > on at
> > a glance, this might be misleading for users and reviewers as
> > described
> > earlier.
> > 
> > Ludwig
> The build sheet isn’t completely indicative of a package being good
> to go or
> not: As the team has assured me, builds failing because the
> “perceval”
> machine can’t handle C++11 are no problem.

Just to clarify, C++11 is not supported on Mac OS X Snow Leopard (10.6.x) because the compilers are too old to support it. Hence packages that contain C++11 code are not supported on this platform but they are available on other platforms. In general we prefer that packages be supported on all platforms; however, Snow Leopard support in R is being phased out.

The build system has the option to mark a package as unsupported on a given platform; if we did that for packages containing C++11 code, the build shield would be green for those packages (assuming no other problems).



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